the content of FAST5 files that are generated from MinION

Question

[984366176]

The MinION sequencer generate a large number of FAST5 files. I use the 'h5dump' to view the entire contents of the FAST5 file, but I can not clearly understand the internal information of the FAST5 files and what the make up mean, such as some GROUP,ATTRIBUTE. Are there any papers that illustrate FAST5 files in detail? Thanks.

[Pierre Lindenbaum]

GROUP,ATTRIBUTE are part of the "standard" hdf5 format: https://support.hdfgroup.org/HDF5/

[984366176]

In FAST5 file, there are many GROUP,ATTRIBUTE and other H5T_IEEE_I64LE. In this picture, there is a H5T_IEEE_I64LE corresponding to "p_mp_state", but I don't know what "p_mp_state" represent. So I am finding detailed information about FAST5 file.

[WouterDeCoster]

Are you a user of Minion or just playing around with data? If you are a user, you can find a lot of information on the Nanopore community website.

[984366176]

I am not a user of MinION, but the FAST5 files interest me.

Answer 1

[Joseph Hughes]

You may find some useful information here: https://github.com/mw55309/EG_MinION_2016/blob/master/02_Data_Extraction_QC.md

[984366176]

I have read this information from the link,it is useful indeed.Thank you very much